RetrogeneDB ID: retro_mmul_146

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 16:35566068..35566920(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: ENSMMUG00000002749
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: MMU.9733
• Ensembl ID: ENSMMUG00000023397
• Aliases: None
• Description: None

Sequence

>retro_mmul_146
ATGGCCAGCTATCCGTACCGGCAGGGCTGCCCAGGAGCTGCAGGACAAGCACCAGGAGCCCCTCCGGGTAGCTACTACCC
TGGACCCCCCAATAGTGGAGGGCAGTATGGCAGTGGGCTACCCCCTGGTGGTTATGGGGGTCCTGCCCCTGGAGGGCCTT
ATGGACCACCAGCTGGTGGAGGGCCTTATGGACACCCCAGTCCTGGCATGTTCCCCTCTGGAACTCCAGGAGGACCATAT
GGCGGTGCAGCTCCAGGGGGCCCCTATGGTCAGCCACCTCCAAGTTCCTATGGTGCCCAGCAGCCTGGGCCTTATGGACA
GGGTGGCGCCCCTCCCAATGTGGATCCTGAGGCCTACTCCTGGTTCCAGTCGGTGGACTCAGATCACAGTGGCTATATCT
CCATGAAGGAGCTAAAGCAGGCCCTGGTCAACTGCAATTGGTCCTCATTCAATGATGAGACCTGCCTCATGATGATAAAC
ATGTTTGACAAGACCAAGTCAGGCCGCATCGATGTCTACGGCTTCTCAGCCCTGTGGAAATTCATCCAGCAGTGGAAGAA
CCTCTTCCAGCAGTATGACCGGGACCGCTCGGGCTCCATTAGCTACACAGAGCTGCAGCAAGCTCTGTCCCAAATGGGCT
ACAACCTGAGCCCCCAGTTCACCCAGCTTCTGGTCTCCCGCTACTGCCCATGCTCTGCCAATCCTGCCATGCAGCTGGAC
CGCTTCATCCAGGTGTGCACCCAGCTGCAGGTGCTGACAGAGGCCTTCCGGGAGAAGGACACAGCTGTACAAGGCAACAT
TCGGTGCTGCTTCGAGGACTTCGTCACCATGACAGCTTCTCGGATGCTATGA

Alignment

ORF - retro_mmul_146 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.59 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASYPYRQGCPGAAGQAPGAPPGSYYPGPPNSGGQYGSGLPPGGYGGPAPGGPYGPPAGGGPYGHPSPGM
          MASYPYRQGCPGAAGQAPGAPPGSYYPGPPNSGGQYGSGLPPGGYGGPAPGGPYGPPAGGGPYGHPSPGM
Retrocopy MASYPYRQGCPGAAGQAPGAPPGSYYPGPPNSGGQYGSGLPPGGYGGPAPGGPYGPPAGGGPYGHPSPGM

Parental  FPSGTPGGPYGGAAPGGPYGQPPLSSYGAQQPGPYGQGGAPPNVDPEAYSWFQSVDSDHSGYISMKELKQ
          FPSGTPGGPYGGAAPGGPYGQPP.SSYGAQQPGPYGQGGAPPNVDPEAYSWFQSVDSDHSGYISMKELKQ
Retrocopy FPSGTPGGPYGGAAPGGPYGQPPPSSYGAQQPGPYGQGGAPPNVDPEAYSWFQSVDSDHSGYISMKELKQ

Parental  ALVNCNWSSFNDETCLMMINMFDKTKSGRIDVYGFSALWKFIQQWKNLFQQYDRDRSGSISYTELQQALS
          ALVNCNWSSFNDETCLMMINMFDKTKSGRIDVYGFSALWKFIQQWKNLFQQYDRDRSGSISYTELQQALS
Retrocopy ALVNCNWSSFNDETCLMMINMFDKTKSGRIDVYGFSALWKFIQQWKNLFQQYDRDRSGSISYTELQQALS

Parental  QMGYNLSPQFTQLLVSRYCPRSANPAMQLDRFIQVCTQLQVLTEAFREKDTAVQGNIRLSFEDFVTMTAS
          QMGYNLSPQFTQLLVSRYCP.SANPAMQLDRFIQVCTQLQVLTEAFREKDTAVQGNIR..FEDFVTMTAS
Retrocopy QMGYNLSPQFTQLLVSRYCPCSANPAMQLDRFIQVCTQLQVLTEAFREKDTAVQGNIRCCFEDFVTMTAS

Parental  RML
          RML
Retrocopy RML

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	10.53 RPM
SRP007412_brain_prefrontal_cortex	1.67 RPM	36.65 RPM
SRP007412_cerebellum	0.06 RPM	9.82 RPM
SRP007412_heart	0.00 RPM	8.13 RPM
SRP007412_kidney	0.00 RPM	16.55 RPM
SRP007412_liver	0.00 RPM	18.72 RPM
SRP007412_testis	0.04 RPM	29.17 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_146 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_146 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_146 has 0 orthologous retrocopies within eutheria group .

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Parental genes homology:

Parental genes homology involve 12 parental genes, and 13 retrocopies.

Species	Parental gene accession	Retrocopies number
Callithrix jacchus	ENSCJAG00000006355	1 retrocopy	retro_cjac_1745,
Homo sapiens	ENSG00000162517	1 retrocopy	retro_hsap_497,
Gorilla gorilla	ENSGGOG00000015897	1 retrocopy	retro_ggor_464,
Macropus eugenii	ENSMEUG00000014458	1 retrocopy	retro_meug_375,
Microcebus murinus	ENSMICG00000001374	1 retrocopy	retro_mmur_937,
Macaca mulatta	ENSMMUG00000023397	1 retrocopy	retro_mmul_146 ,
Monodelphis domestica	ENSMODG00000017573	1 retrocopy	retro_mdom_1930,
Nomascus leucogenys	ENSNLEG00000001979	1 retrocopy	retro_nleu_2422,
Oryctolagus cuniculus	ENSOCUG00000005744	1 retrocopy	retro_ocun_461,
Pongo abelii	ENSPPYG00000001611	1 retrocopy	retro_pabe_238,
Pan troglodytes	ENSPTRG00000000463	1 retrocopy	retro_ptro_375,
Rattus norvegicus	ENSRNOG00000013972	2 retrocopies	retro_rnor_1563, retro_rnor_2505,